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*Minutes from the last SDIWG tcon [[SDIWG:Meeting_Minutes_20100219|February 19, 2010]] (5 min) | *Minutes from the last SDIWG tcon [[SDIWG:Meeting_Minutes_20100219|February 19, 2010]] (5 min) | ||
*Status check on '''working groups''': | *Status check on '''working groups''': | ||
| − | **[http://www.biositemaps.org Biositemaps] is a technology to address (i) describing, (ii) locating, (ii) querying, (iii) composing or combining, and (iv) navigating/mining biomedical resources. The underlying technology for Biositemaps is the [http://bioportal.bioontology.org/visualize/40656 Biomedical Resource Ontology (BRO) V3] and [http://biositemaps.bioontology.org/editor/ Information Model (IM)] which is encapsulated in the Biositemaps Editor. [ | + | **[http://www.biositemaps.org Biositemaps] is a technology to address (i) describing, (ii) locating, (ii) querying, (iii) composing or combining, and (iv) navigating/mining biomedical resources. The underlying technology for Biositemaps is the [http://bioportal.bioontology.org/visualize/40656 Biomedical Resource Ontology (BRO) V3] and [http://biositemaps.bioontology.org/editor/ Information Model (IM)] which is encapsulated in the Biositemaps Editor. If you are interested, send [mailto:lysterp@mail.nih.gov Peter Lyster] a request for a copy of a paper on Biositemaps and BRO that was recently submitted with lead author Jessie Tennenbaum. Also, please try out the new query tool: [http://www.biositemaps.org/rds Resource Discovery System (RDS)]. You can find the NCBC resources by selecting the "Resource Program" tab and then selecting 'NCBC'. |
| − | *** ([http://www.loni.ucla.edu/~dinov Ivo Dinov]) [ | + | *** ([http://www.loni.ucla.edu/~dinov Ivo Dinov]) [https://na-mic.org/w/images/9/96/CCB_Supplement_Biositemaps_Pipeline_Report_2010.pdf Biositemaps.RDF Extension facilitating resource execution, invocation, input/output and process control, and interoperability]. |
**** Example: CCB Biositemap.RDF | **** Example: CCB Biositemap.RDF | ||
***** [http://www.loni.ucla.edu/download/iTools/biositemap_NCBC_CCB.rdf Original (Standard RDF)] | ***** [http://www.loni.ucla.edu/download/iTools/biositemap_NCBC_CCB.rdf Original (Standard RDF)] | ||
| − | ***** [ | + | ***** [https://na-mic.org/w/images/e/e8/Biositemap_NCBC_CCB_PL_update021610.rdf Extended Biositemap_NCBC_CCB_PL_update021610.rdf] |
| − | ***** [ | + | ***** [https://na-mic.org/w/images/1/16/Biositemap_NCBC_CCB_PL_update021610_ByRef.rdf Extended Biositemap_NCBC_CCB_PL_update021610_ByRef.rdf] (scalable by-reference version). |
| − | **** Example Pipeline workflows ([ | + | **** Example Pipeline workflows ([https://na-mic.org/w/images/3/3b/ND_WaveletTransform_WAIR.pipe.txt ND_WaveletTransform_WAIR.pipe], [https://na-mic.org/w/images/1/12/ShapeTransform.pipe.txt ShapeTransform.pipe], [https://na-mic.org/w/images/d/db/ShapeDistance.pipe.txt ShapeDistance.pipe]). |
**** [http://pipeline.loni.ucla.edu/support/xml-overview/ Pipeline XML Invocation Protocol]. | **** [http://pipeline.loni.ucla.edu/support/xml-overview/ Pipeline XML Invocation Protocol]. | ||
**** [http://www.loni.ucla.edu/twiki/bin/view/CCB/ITools_BiositemapsPipelineWorkflows See also this page]. | **** [http://www.loni.ucla.edu/twiki/bin/view/CCB/ITools_BiositemapsPipelineWorkflows See also this page]. | ||
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* '''Note taker''': [Suggested order of note takers for future meetings:'''Dinov (This one)''', Murphy (Next one), Ku, Schroeder, Floratos, Rubenson, Jags] | * '''Note taker''': [Suggested order of note takers for future meetings:'''Dinov (This one)''', Murphy (Next one), Ku, Schroeder, Floratos, Rubenson, Jags] | ||
* Review of [[SDIWG:Meeting_Minutes_20100219|February 19, 2010 Minutes]] | * Review of [[SDIWG:Meeting_Minutes_20100219|February 19, 2010 Minutes]] | ||
| − | * Attendees: David Rubenson, Ivo Dinov, Karen Skinner, Susanne Churchill, Gil | + | * Attendees: David Rubenson, Ivo Dinov, Karen Skinner, Susanne Churchill, Gil Omenn, Trish Whetzel, Will Schroeder, Zohara Cohen, Peter Lyster, Jeannette Schmidt, Zak Kohane. |
* Peter/Zohara - [http://wiki.simtk.org/ncbcdisseminate/ dissemination efforts] / [http://www.ncbcs.org/cal.html NCBC Calendar]; [http://www.ncbcs.org/ NCBC web-page], [http://www.ncbcs.org/dbp_interactions.html DBP interactions] (access-stats, maps). How useful/used is the NCBC Calendar? Possible to add NCBC-Cal to Google/Personal Calendars. | * Peter/Zohara - [http://wiki.simtk.org/ncbcdisseminate/ dissemination efforts] / [http://www.ncbcs.org/cal.html NCBC Calendar]; [http://www.ncbcs.org/ NCBC web-page], [http://www.ncbcs.org/dbp_interactions.html DBP interactions] (access-stats, maps). How useful/used is the NCBC Calendar? Possible to add NCBC-Cal to Google/Personal Calendars. | ||
| Line 43: | Line 43: | ||
* Peter release of the [http://www.biositemaps.org/rds RDS (Resource Discovery System)]. | * Peter release of the [http://www.biositemaps.org/rds RDS (Resource Discovery System)]. | ||
* CTSA/Biositemaps WG continues to make progress. Released RDS V.2? | * CTSA/Biositemaps WG continues to make progress. Released RDS V.2? | ||
| − | * Trish: latest efforts on [ BRO]. NCBC/CTSA collab - request from Pitt to include new regulatory branch - continually updated. Need to continue discussions on: | + | * Trish: latest efforts on [http://bioportal.bioontology.org/visualize/40656 BRO 3.1]. NCBC/CTSA collab - request from Pitt to include new regulatory branch - continually updated. Need to continue discussions on: |
** Update existing Biositemaps.RDF files and account for deprecated RDF constructs. Auto updates? | ** Update existing Biositemaps.RDF files and account for deprecated RDF constructs. Auto updates? | ||
** Extending the IM (Information model) to allow tool interoperability and comp-tool integration. | ** Extending the IM (Information model) to allow tool interoperability and comp-tool integration. | ||
| + | ** (Trish) Added announcements to BRO? | ||
| + | ** Send to Beth and Peter comments on RDS (2.0) functionality/operations/features. | ||
| + | ** Karen S: Any stats on RDS usage yet? Peter: Dev team is NCBC/Pitt - none of them are on this call (Peter will check with them). | ||
| + | ** BRO Paper (Jessie/Duke), in review. | ||
| + | * Peter: RDF extension Pipelining: Ivo suggested drafting some details on hands-on utilization of the Biositemaps.RDF extension enabling the tool interoperability. | ||
| + | * Peter: Action Items as above. | ||
| + | * Peter: NCBC Renewal apps (June 15 review; Council Review Sept). | ||
| + | ** Susanne: Inter-interval/intermediate funding? | ||
| + | ** No-cost extension apps (at least until the end of August/September) - check with program officer. | ||
| + | ** Jeannette - assuming Aug/Sept (bridge?) difficult to plan. | ||
===Action Items=== | ===Action Items=== | ||
* TBD | * TBD | ||
Latest revision as of 18:27, 10 July 2017
Home < SDIWG:Meeting Minutes 20100528Contents
NCBC Joint Working Group Meeting
Notes
Friday May 28, 2010: 2:30-3:30 PM EST
Please contact Peter Lyster for information Peter Lyster
SDIWG Meetings Page
Save the date for the next SDWIG tcon/Connect, three months from now: August 20, 2010
Tcon DRAFT Agenda
- Roll Call/Note-taker (Ivo) (5 min)
- Minutes from the last SDIWG tcon February 19, 2010 (5 min)
- Status check on working groups:
- Biositemaps is a technology to address (i) describing, (ii) locating, (ii) querying, (iii) composing or combining, and (iv) navigating/mining biomedical resources. The underlying technology for Biositemaps is the Biomedical Resource Ontology (BRO) V3 and Information Model (IM) which is encapsulated in the Biositemaps Editor. If you are interested, send Peter Lyster a request for a copy of a paper on Biositemaps and BRO that was recently submitted with lead author Jessie Tennenbaum. Also, please try out the new query tool: Resource Discovery System (RDS). You can find the NCBC resources by selecting the "Resource Program" tab and then selecting 'NCBC'.
- (Ivo Dinov) Biositemaps.RDF Extension facilitating resource execution, invocation, input/output and process control, and interoperability.
- Example: CCB Biositemap.RDF
- Original (Standard RDF)
- Extended Biositemap_NCBC_CCB_PL_update021610.rdf
- Extended Biositemap_NCBC_CCB_PL_update021610_ByRef.rdf (scalable by-reference version).
- Example Pipeline workflows (ND_WaveletTransform_WAIR.pipe, ShapeTransform.pipe, ShapeDistance.pipe).
- Pipeline XML Invocation Protocol.
- See also this page.
- iTools/Biositemaps XLS Support (pending validation).
- Example: CCB Biositemap.RDF
- Plans for adoption within and beyond NCBCs: CTSA, NIF, NITRC,IMAG,...
- (Ivo Dinov) Biositemaps.RDF Extension facilitating resource execution, invocation, input/output and process control, and interoperability.
- Scientific Ontologies
- NCBC Driving Biological Projects Interactions and Impact
- NCBC Dissemination and shared calendar: NCBC Dissemination page. The NCBC calendar with NCBC RSS feeds for all centers. Please check it out and provide feedback. (Joy)
- Biositemaps is a technology to address (i) describing, (ii) locating, (ii) querying, (iii) composing or combining, and (iv) navigating/mining biomedical resources. The underlying technology for Biositemaps is the Biomedical Resource Ontology (BRO) V3 and Information Model (IM) which is encapsulated in the Biositemaps Editor. If you are interested, send Peter Lyster a request for a copy of a paper on Biositemaps and BRO that was recently submitted with lead author Jessie Tennenbaum. Also, please try out the new query tool: Resource Discovery System (RDS). You can find the NCBC resources by selecting the "Resource Program" tab and then selecting 'NCBC'.
Minutes
- Note taker: [Suggested order of note takers for future meetings:Dinov (This one), Murphy (Next one), Ku, Schroeder, Floratos, Rubenson, Jags]
- Review of February 19, 2010 Minutes
- Attendees: David Rubenson, Ivo Dinov, Karen Skinner, Susanne Churchill, Gil Omenn, Trish Whetzel, Will Schroeder, Zohara Cohen, Peter Lyster, Jeannette Schmidt, Zak Kohane.
- Peter/Zohara - dissemination efforts / NCBC Calendar; NCBC web-page, DBP interactions (access-stats, maps). How useful/used is the NCBC Calendar? Possible to add NCBC-Cal to Google/Personal Calendars.
- Email and Calendars are now low-maintenance.
- There are about 200 subscribers to this list (NCBC-Cal?)
- Peter: Merger/Symbiosis of DBP and Calendar efforts.
- Peter release of the RDS (Resource Discovery System).
- CTSA/Biositemaps WG continues to make progress. Released RDS V.2?
- Trish: latest efforts on BRO 3.1. NCBC/CTSA collab - request from Pitt to include new regulatory branch - continually updated. Need to continue discussions on:
- Update existing Biositemaps.RDF files and account for deprecated RDF constructs. Auto updates?
- Extending the IM (Information model) to allow tool interoperability and comp-tool integration.
- (Trish) Added announcements to BRO?
- Send to Beth and Peter comments on RDS (2.0) functionality/operations/features.
- Karen S: Any stats on RDS usage yet? Peter: Dev team is NCBC/Pitt - none of them are on this call (Peter will check with them).
- BRO Paper (Jessie/Duke), in review.
- Peter: RDF extension Pipelining: Ivo suggested drafting some details on hands-on utilization of the Biositemaps.RDF extension enabling the tool interoperability.
- Peter: Action Items as above.
- Peter: NCBC Renewal apps (June 15 review; Council Review Sept).
- Susanne: Inter-interval/intermediate funding?
- No-cost extension apps (at least until the end of August/September) - check with program officer.
- Jeannette - assuming Aug/Sept (bridge?) difficult to plan.
Action Items
- TBD
